Seohyun Lee - The University of Tokyo

Education

Oct. 2014.	-	Sep. 2018.	Ph.D., Department of Physics, Graduate School of Science, the University of Tokyo
Oct. 2012.	-	Sep. 2014.	M.S., Department of Physics, Graduate School of Science, the University of Tokyo
Mar. 2002.	-	Aug. 2007.	B.S., Department of Physics, College of Natural Science, Ewha Womans University (Seoul, South Korea)

Work Experiences

Apr. 2024.	-	Present	Research associate / Assistant Professor Interfaculty Initiative in Information Studies (III) & Graduate School of Interdisciplinary Information Studies , The University of Tokyo
Oct. 2021.	-	Mar. 2024.	Project research associate Laboratory of Computational Genomics, Institute for Quantitative Biosciences (IQB), The University of Tokyo
Apr. 2020.	-	Sep. 2021.	Project researcher Data Science Research Division, Information Technology Center, The University of Tokyo
Nov. 2018.	-	Mar. 2020.	Project researcher Graduate School of Information Science and Technology, The University of Tokyo
Jul. 2007.	-	Jun. 2009.	Research engineer SK hynix (South Korea)

Competitive Research Funding

Sep. 2024.	-	Mar. 2025.	UTOPIA AI Research Discovery Program by AMED	Principal investigator AI-based tool for vesicle transport analysis aimed at elucidating infection routes and drug delivery processes proj. no. 130804PXPX
Oct. 2021.	-	Mar. 2025.	Fund for the Promotion of Joint International Research (Fostering Joint International Research (B))	Co-investigator Dynamic behavior and pathological significance of small RNA in outer membrane vesicles of periodontopathic bacteria proj. no. 21KK0164
Apr. 2020.	-	Mar. 2023.	Grant-in-Aid for Young Scientists	Principal investigator Development of cell image data analysis method for highly accurate 3D vesicle movement detection based on computer vision techniques proj. no. 20K15753
Aug. 2019.	-	Mar. 2021.	Grant-in-Aid for Research Activity start-up	Principal investigator Understanding the intracellular transport of endosomes using machine learning approach proj. no. 19K23717

Academic Honors

Sep. 2023.			Best Poster Presentation Award in 2023 IIBMP (Informatics in Biology, Medicine and Pharmacology) Title: "ChromBERT: Identifying Chromatin State Patterns in Human Genome via BERT Techniques"
Oct. 2014.	-	Sep. 2017.	Japanese Government (MEXT) Scholarship for Doctoral Program (Embassy Recommendation)
Apr. 2011.	-	Sep. 2014.	Japanese Government (MEXT) Scholarship for Master's Program (Embassy Recommendation)

Publications

Journal Papers

Luis Augusto Eijy Nagai, Seohyun Lee, and Ryuichiro Nakato: Protocol for identifying differentially expressed genes using the RumBall RNA-seq analysis platform, STAR Protocols, Vol. 5, No. 1:102926, Mar. 2024. [DOI:10.1016/j.xpro.2024.102926]
Seohyun Lee, Hyuno Kim, Hideo Higuchi, and Masatoshi Ishikawa: Visualization Method for the Cell-level Vesicle Transport Using Optical Flow and Diverging Colormap, Sensors, Vol. 21(2), No. 522, pp. 1-13, Jan. 2021. [DOI:10.3390/s21020522]
Seohyun Lee, Hyuno Kim, and Hideo Higuchi: Extended Dual-Focus Microscopy for Ratiometric-Based 3D Movement Tracking, Applied Sciences, Vol. 10(18), No. 6243, pp. 1-12, Sep. 2020. [DOI:10.3390/app10186243]
Seohyun Lee and Hideo Higuchi: 3D rotational motion of an endocytic vesicle on a complex microtubule network in a living cell, Biomedical Optics Express, Vol. 10, No. 12, pp. 6611-6624, Nov. 2019. [DOI:10.1364/BOE.10.006611]
Seohyun Lee, Hyuno Kim, and Hideo Higuchi: Numerical method for vesicle movement analysis in a complex cytoskeleton network, Optics Express, Vol. 26, No. 13, pp. 16236-16249, Jun. 2018. [DOI:10.1364/OE.26.016236]

Conference Papers

Seohyun Lee, Hyuno Kim, and Hideo Higuchi: Automation of detecting and tracking 3D vesicle transport using dual-focus optics, SPIE Photonics West BiOS 2023 (San Francisco, United States, 2023. 2) / Proceedings, 123850E [DOI:10.1117/12.2649474]
Hyuno Kim, Seohyun Lee, and Yuji Yamakawa: Direct face pose estimation using multiple camera views and deep learning, SPIE Photonics West BiOS 2023 (San Francisco, United States, 2023. 2) / Proceedings, 1243814 [DOI:10.1117/12.2651041]
Seohyun Lee, Hyuno Kim, Hideo Higuchi, and Masatoshi Ishikawa: Deep learning approach for metastatic cancer cell classification using live-cell imaging data, SPIE Photonics West BiOS 2022 (San Francisco, United States, 2022. 2) / Proceedings, 1196404 [DOI:10.1117/12.2608017] invited
Seohyun Lee, Hyuno Kim, Hideo Higuchi, Masatoshi Ishikawa, and Nakato Ryuichiro: A Generative Adversarial Network Approach to Metastatic Cancer Cell Images, 2022 IEEE International Conference on Artificial Intelligence in Information and Communication , (Bali, Indonesia, 2022. 2.) as Online conference / Proceedings, pp. 403-406. [DOI:10.1109/ICAIIC54071.2022.9722664]
Seohyun Lee, Hyuno Kim, Hideo Higuchi, and Masatoshi Ishikawa: Classification of Metastatic Breast Cancer Cell using Deep Learning Approach, 2021 IEEE International Conference on Artificial Intelligence in Information and Communication , (Jeju island, South Korea, 2021. 4.) as Online conference / Proceedings, pp. 425-428. [DOI:10.1109/ICAIIC51459.2021.9415245]
Seohyun Lee, Hyuno Kim, Hideo Higuchi, and Masatoshi Ishikawa: A machine learning approach to transport categorization for vesicle tracking data analysis, SPIE Photonics West BiOS 2021 (San Francisco, United States, 2021. 3) as Online conference / Proceedings, pp. 1-5 [DOI:10.1117/12.2576170]
Seohyun Lee, Hyuno Kim, Hideo Higuchi, and Masatoshi Ishikawa: Estimation of Vesicle Transport near the Cellular Membrane using Image Processing, 2020 OSA Imaging and Applied Optics Congress (Vancouver, Canada, 2020. 6.) as Online conference / (JF4E.2)
Seohyun Lee, Hyuno Kim, Hideo Higuchi, and Masatoshi Ishikawa: Visualization and Data Analysis for Intracellular Transport using Computer Vision Techniques, 2020 IEEE Sensors Applications Symposium (Kuala Lumpur, Malaysia, 2020. 3.) as Online conference / Proceedings, pp. 1-6 [DOI:10.1109/SAS48726.2020.9220026]
Seohyun Lee, Hyuno Kim, and Masatoshi Ishikawa: Deep Learning Approach to Face Pose Estimation for High-Speed Camera Network System, 2020 IEEE International Conference on Artificial Intelligence in Information and Communication (Fukuoka, Japan, 2020. 2.) / Proceedings, pp. 84-88. [DOI:10.1109/ICAIIC48513.2020.9065051]
Seohyun Lee, Hyuno Kim, Hideo Higuchi, and Masatoshi Ishikawa: Optical flow of vesicles: Computer vision approach for endocytosis of nanoparticles in a living cell, SPIE Photonics West BiOS 2020 (San Francisco, United States, 2020. 2.) / Proceedings, Vol. 11254, pp. 1-6. [DOI:10.1117/12.2543455]
Seohyun Lee, Tomohiko Hayakawa, Chika Nishimura, Satoshi Yawata, Hiroki Yagi, Dai Watanabe, and Masatoshi Ishikawa: Comparison of Deep Learning and Image Processing for Tracking the Cognitive Motion of a Laboratory Mouse, 2019 IEEE Biomedical Circuits and Systems Conference (Nara, Japan, 2019. 10.) / Proceedings, pp. 1-4. [DOI:10.1109/BIOCAS.2019.8919239]
Seohyun Lee, Tomohiko Hayakawa, Chika Nishimura, Satoshi Yawata, Dai Watanabe, and Masatoshi Ishikawa: Movement Analysis for Volitional Direction Change of Laboratory Mouse based on High-Speed Imaging, 2019 OSA Imaging and Applied Optics (Munich, Germany, 2019. 6.) / [DOI:10.1364/ISA.2019.IW1C.1]
Hyuno Kim, Ryo Ito, Seohyun Lee, Yuji Yamakawa, and Masatoshi Ishikawa: Simulation of Face Pose Tracking System using Adaptive Vision Switching, 2019 IEEE Sensors Applications Symposium (Sophia Antipolis, France, 2019. 3.) / Proceedings, pp. 1-6. [DOI:10.1109/SAS.2019.8706000]
Seohyun Lee, Hyuno Kim, Masatoshi Ishikawa, and Hideo Higuchi: 3D Nanoscale Tracking Data Analysis for Intracellular Organelle Movement using Machine Learning Approach, 2019 IEEE International Conference on Artificial Intelligence in Information and Communication (Okinawa, Japan, 2019. 2.) / Proceedings, pp. 181-184 [DOI:10.1109/ICAIIC.2019.8669003]
Seohyun Lee, Hyuno Kim, and Hideo Higuchi: Focus Stabilization by Axial Position Feedback in Biomedical Imaging Microscopy, 2018 IEEE Sensors Applications Symposium (Seoul, South Korea, 2018. 3.) / Proceedings, pp. 309-314. [DOI:10.1109/SAS.2018.8336767]

Presentations

International Meetings

2025	[Poster]	69th Biophysical Society Annual Meeting [Scheduled] (Los Angeles, United States)
2024	[Oral]	17th IEEE NANOMED [Scheduled] (Honolulu, United States)
	[Poster]	1st Asia & Pacific Bioinformatics Joint Conference (Okinawa, Japan)
	[Oral]	28th UT-SNU-NCCU International Symposium (Taipei, Taiwan)
2023	[Poster]	2023 SPIE Photonics West BiOS (San Francisco, United States)
2022	[Oral]	4th IEEE International Conference on Artificial Intelligence in Information and Communication (Online)
	[Oral]	2022 SPIE Photonics West BiOS (San Francisco, United States \| Online) invited
2021	[Oral]	2021 SPIE Photonics West BiOS (San Francisco, United States \| Online)
	[Oral]	3rd IEEE International Conference on Artificial Intelligence in Information and Communication (Online)
2020	[Oral]	IEEE Sensors Applications Symposium (Online)
	[Oral]	2020 OSA Imaging and Applied Optics Congress (Vancouver, Canada \| Online)
	[Poster]	64th Biophysical Society Annual Meeting (San Diego, United States)
	[Poster]	2020 SPIE Photonics West BiOS (San Francisco, United States)
2019	[Poster]	2019 IEEE Biomedical Circuits and Systems Conference (Nara, Japan)
	[Oral]	2019 OSA Imaging and Applied Optics Congress (Munich, Germany)
	[Oral]	1st IEEE International Conference on Artificial Intelligence in Information and Communication (Okinawa, Japan)
2018	[Oral]	IEEE Sensors Applications Symposium (Seoul, South Korea)
2017	[Oral]	9th A3 Foresight Meeting on Biomedicine (Yokohama, Japan)
2013	[Poster]	Joint Workshop on Bio-Soft Matter (Seoul, South Korea)

Domestic Meetings

2025	[Poster]	2nd Joint Symposium on Vaccine Development Hub Projects [Scheduled] (Kobe)
2024	[Oral]	47th Annual Meeting of the Molecular Biology Society of Japan [Scheduled] (Fukuoka)
2023	[Poster]	46th Annual Meeting of the Molecular Biology Society of Japan (Kobe)
	[Poster]	12th IIBMP (Informatics in Biology, Medicine and Pharmacology) (Kashiwanoha) Title: "ChromBERT: Identifying Chromatin State Patterns in Human Genome via BERT Techniques" Best Poster Presentation Award
2022	[Poster]	60th Annual Meeting of the Biophysical Society of Japan (Hakodate)
	[Oral]	11th IIBMP (Informatics in Biology, Medicine and Pharmacology) (Osaka)
	[Oral]	4th Cellular Diversity (Online)
2018	[Oral]	56th Annual Meeting of the Biophysical Society of Japan (Okayama)
	[Oral]	16th Annual Meeting of the Society of Nano Science and Technology (Tokyo)
	[Oral]	Joint meeting on Living Body Movement (Tokyo)
2017	[Oral]	55th Annual Meeting of the Biophysical Society of Japan (Kumamoto)
2016	[Oral]	54th Annual Meeting of the Biophysical Society of Japan (Tsukuba)
2015	[Oral]	53rd Annual Meeting of the Biophysical Society of Japan (Kanazawa)
	[Poster]	13th Annual Meeting of the Society of Nano Science and Technology (Sendai)
	[Oral]	Joint meeting on Living Body Movement (Tokyo)
2014	[Poster]	52nd Annual Meeting of the Biophysical Society of Japan (Sapporo)

Academic Memberships

Apr. 2024	-	Present	Organizing Committee Member, UTokyo-SNU-NCCU International Symposium
Jul. 2022	-	Present	Member, The Molecular Biology Society of Japan
May. 2022	-	Present	Member, Japanese Society for Bioinformatics
Feb. 2021	-	Present	Member, Biophysical Society
Jan. 2021	-	Present	Member, The international Society for Optics and Photonics
Oct. 2019	-	Sep. 2024	Member, Optical Society of America
Jul. 2014	-	Present	Member, The Biophysical Society of Japan

Extracurricular Activities

Jun. 2021			TESOL Certification from Arizona State University
Feb. 2013	-	Aug. 2013	English teacher at Association for Promotion of International Understanding
Jul. 2005	-	Jul. 2006	Exchange student in Technische Universität Darmstadt (Darmstadt, Germany)

Additional Information

Languages: Korean (Native), English (Fluent), Japanese (Fluent), German (Elementary), Chinese (Beginner)
Interests: Reading books, crocheting, practicing yoga, and listening to Taylor Swift (Hi there, Swifties! )